details: http://www.bx.psu.edu/hg/galaxy/rev/a2662059af4d changeset: 2877:a2662059af4d user: Ross Lazarus ross.lazarus@gmail.com date: Tue Oct 13 13:07:43 2009 -0400 description: use files_path not extra_files_path for all outputs in rgenetics converters
3 file(s) affected in this change:
lib/galaxy/datatypes/converters/lped_to_fped_converter.xml lib/galaxy/datatypes/converters/lped_to_pbed_converter.xml lib/galaxy/datatypes/converters/pbed_to_lped_converter.xml
diffs (36 lines):
diff -r e11e89fd2c82 -r a2662059af4d lib/galaxy/datatypes/converters/lped_to_fped_converter.xml --- a/lib/galaxy/datatypes/converters/lped_to_fped_converter.xml Mon Oct 12 19:00:39 2009 -0400 +++ b/lib/galaxy/datatypes/converters/lped_to_fped_converter.xml Tue Oct 13 13:07:43 2009 -0400 @@ -2,7 +2,7 @@ <!-- <description>__NOT_USED_CURRENTLY_FOR_CONVERTERS__</description> --> <!-- Used on the metadata edit page. --> <command interpreter="python"> - lped_to_fped_converter.py '$input1.extra_files_path/$input1.metadata.base_name' '$output1' '$output1.extra_files_path' + lped_to_fped_converter.py '$input1.extra_files_path/$input1.metadata.base_name' '$output1' '$output1.files_path' </command> <inputs> <param format="lped" name="input1" type="data" label="Choose linkage pedigree file"/> diff -r e11e89fd2c82 -r a2662059af4d lib/galaxy/datatypes/converters/lped_to_pbed_converter.xml --- a/lib/galaxy/datatypes/converters/lped_to_pbed_converter.xml Mon Oct 12 19:00:39 2009 -0400 +++ b/lib/galaxy/datatypes/converters/lped_to_pbed_converter.xml Tue Oct 13 13:07:43 2009 -0400 @@ -3,7 +3,7 @@ <!-- Used on the metadata edit page. --> <command interpreter="python"> lped_to_pbed_converter.py '$input1.extra_files_path/$input1.metadata.base_name' - '$output1' '$output1.extra_files_path' '${GALAXY_DATA_INDEX_DIR}/rg/bin/plink' + '$output1' '$output1.files_path' '${GALAXY_DATA_INDEX_DIR}/rg/bin/plink' </command> <inputs> <param format="lped" name="input1" type="data" label="Choose linkage pedigree file"/> diff -r e11e89fd2c82 -r a2662059af4d lib/galaxy/datatypes/converters/pbed_to_lped_converter.xml --- a/lib/galaxy/datatypes/converters/pbed_to_lped_converter.xml Mon Oct 12 19:00:39 2009 -0400 +++ b/lib/galaxy/datatypes/converters/pbed_to_lped_converter.xml Tue Oct 13 13:07:43 2009 -0400 @@ -3,7 +3,7 @@ <!-- Used on the metadata edit page. --> <command interpreter="python"> pbed_to_lped_converter.py '$input1.extra_files_path/$input1.metadata.base_name' - '$output1' '$output1.extra_files_path' '${GALAXY_DATA_INDEX_DIR}/rg/bin/plink' + '$output1' '$output1.files_path' '${GALAXY_DATA_INDEX_DIR}/rg/bin/plink' </command> <inputs> <param format="pbed" name="input1" type="data" label="Choose compressed Plink binary format genotype file"/>